ライフサイエンスコーパス: base sequence

1 otide whereas their target is defined by the base sequence.

2 re also strongly influenced by their precise base sequence.

3 NA molecule of kilobase length and specified base sequence.

4 state dynamics in DNAs having an appropriate base sequence.

5 DNA replication could also be influenced by base sequence.

6 king pattern and groove width as a result of base sequence.

7 the strands of nucleic acids depends on the base sequence.

8 ng elements due to long range effects of the base sequence.

9 lar to a typical B-DNA of similar length and base sequence.

10 rally smaller than f(ins) and also depend on base sequence.

11 eoxyribonucleic acid (ssDNA) with a specific base sequence.

12 s-anti-B[a]P-N6-dA, are repaired in the same base sequence.

13 ering the possibility of obtaining any given base sequence.

14 hanges on DNA and to recognize non-contacted base sequence.

15 duce errors at a rate of ~0.1-1 x 10(-2) per base sequenced.

16 consisting of a single purine or alternating base sequences.

17 arying number, within PNA backbones of mixed-base sequences.

18 rs containing all 136 unique tetranucleotide base sequences.

19 differ in their contacted and non-contacted base sequences.

20 containing the 136 distinct tetranucleotide base sequences.

21 hips between auditory nonsense words in rule-based sequences.

22 for targeted exon capture followed by array-based sequencing.

23 ouse) approach those obtained with capillary-based sequencing.

24 produce reads comparable in length to Sanger-based sequencing.

25 iles were characterized by 16S ribosomal RNA-based sequencing.

26 , NS5A, and NS5B were detected by population-based sequencing.

27 line phosphatase (AP) was then hybridized to base sequence 1039-1062 on the target.

28 By analyzing the 1532 base sequence 5' to this TSS, using cloning and lucifera

29 The hybrids have the same base sequence [5'-GGCGCAGGCC(T/U)(T/U)CC-3'/5'-GGAAGGCC(

30 To lay the foundation for hierarchical map-based sequencing, a genome-wide physical map of its larg

31 ckground distribution statistics for profile-based sequence alignment algorithms cannot be calculated

32 e, we introduce zPicture, an interactive Web-based sequence alignment and visualization tool for dyna

33 Structure-based sequence alignment identified the putative catalyt

34 haeal sequences; it incorporates probability-based sequence alignment masks that improve the phylogen

35 Structurally based sequence alignment of DHFRs indicates the followin

36 lt for the AAV4 capsid by use of a structure-based sequence alignment of its major capsid protein, VP

37 Structure-based sequence alignment of mouse IL-6 and human IL-6 re

38 terminal subdomain and generated a structure-based sequence alignment of protein kinases in this regi

39 Structure-based sequence alignment of Rab9 with other Rab proteins

40 A structure-based sequence alignment of the two distinct Man-6-P-bin

41 A structure-based sequence alignment predicts that domain 5 contains

42 Secondary-structure prediction and structure-based sequence alignment suggest that the GerBC structur

43 protein domains using a Hidden Markov Model-based sequence alignment tool (HMMer).

44 A structure-based sequence alignment was performed that predicts tha

45 Using structure-based sequence alignment, we were able to identify other

46 Structure-based sequence alignments indicate that the nine repeats

47 s and provided the information for structure-based sequence alignments of approximately 45 orthologs

48 lly generated database of multiple structure-based sequence alignments of protein superfamilies in th

49 Structure-based sequence alignments predict this quaternary struct

50 n considered in terms of additional homology-based sequence alignments, our studies refine our unders

51 On the basis of structure-based sequence alignments, seven tRNALys anticodon varia

52 Family-based sequencing allowed us to delineate recombination s

53 another X-family polymerase, since computer-based sequence analyses of the C. elegans genome failed

54 Structure-based sequence analyses predict that the ASD defines a c

55 Structural comparisons and structure-based sequence analyses provide insights into how polyam

56 ts (MSAs) is a crucial step in most homology-based sequence analyses, which constitute an integral pa

57 A structure-based sequence analysis allowed us to identify four cata

58 Structure-based sequence analysis and phylogenic tree construction

59 A structure-based sequence analysis identified 4-OD as a member of t

60 In addition, Sanger-based sequence analysis of 4,176 breakpoints at 261 SV s

61 etic assignment is achieved by automated Web-based sequence analysis of amplification products.

62 etic assignment is achieved by automated web-based sequence analysis of amplification products.

63 Single-cell PCR-based sequence analysis of B-1a, B-1b, and B-2 cell IgH

64 Structure-based sequence analysis of the AcpA superfamily predicts

65 Structure-based sequence analysis of the PutA/PRODH family led us

66 Critical to nearly any motif-based sequence analysis pipeline is the ability to scan

67 Population-based sequence analysis revealed the presence of a varia

68 Structure-based sequence analysis suggests that this interface is

69 avirus genomic sequences, accompanied by web-based sequence analysis tools.

70 ator/ and is integrated with the CloVR cloud-based sequence analysis Virtual Machine (VM), which can

71 accessible alternate conformations depend on base sequence and compete for occupancy.

72 PNA molecules (6-mers) with the same nucleic base sequence and different terminal groups are investig

73 sequences, and this folding is determined by base sequence and DNA context.

74 to make a direct connection between the DNA base sequence and larger-scale chromatin folding.

75 igation and Cleavage (CycLiC) for contiguous base sequencing and (ii) apply it directly to a template

76 Population-based sequencing and 454 deep sequencing of NS5B gene we

77 We report a liquid-phase, capture-based sequencing and bioinformatics pipeline, Sleeping B

78 Population-based sequencing and genotyping of multiple loci demonst

79 By applying mass spectroscopy-based sequencing and reverse-phase protein arrays to 547

80 of modulation can be altered by the length, base sequence, and modification state of the ssDNAs.

81 entify S. pneumoniae strains, including lytA-based sequences, and 53 sequence-specific PCRs to identi

82 otein Sequence Annotation Tool (PSAT), a web-based, sequence annotation meta-server for performing in

83 Through a BAC-based sequencing approach, the exact structure and organ

84 he older (but much more expensive) capillary-based sequencing approach.

85 clones using costly and laborious capillary-based sequencing approaches.

86 of identical base composition but different base sequence are also probed.

87 in the distinctly different regime where DNA base sequences are chosen at random or with varying degr

88 scription factor recognition of specific DNA base sequences are well characterized and recent studies

89 ates of variant effect sizes from population-based sequencing are needed to avoid falsely predicting

90 ric linkages while maintaining the wild-type base sequence as we demonstrate for the 10-23 RNA endonu

91 Taking linker based sequences as input, iMapper scans and trims the se

92 ual of African origin using a novel ligation-based sequencing assay that enables a unique form of err

93 Using an array-based sequencing assay, we identified an autosomal-domin

94 le LightAssembler can be considered as a gap-based sequence assembler, different gap sizes result in

95 We present a detailed, BAC-based sequence assembly of the inverted human H2 haploty

96 We present a detailed, BAC-based sequence assembly of the inverted human H2 haploty

97 the protein's ability to recognize contacted base sequences at positions 5-6 bases away.

98 The effects of non-nearest base sequences, beyond the nucleotides flanking a DNA le

99 Fluorescent sense mRNA that contained the 24-base sequence bound to proteins in dendrites and to two

100 as been extensively studied for a variety of base sequences, but the degree of duplex destabilization

101 We describe a novel single molecule nanopore-based sequencing by synthesis (Nano-SBS) strategy that c

102 Recently, we presented a nanopore-based sequencing-by-synthesis (Nanopore-SBS) approach, w

103 in termination sequencing and pyrosequencing-based sequencing-by-synthesis.

104 ng the different arms, while retaining their base sequences, can affect the conformer distribution.

105 Telomeres are repetitive base sequences capping the ends of linear chromosomes, a

106 a large Swedish family was targeted by array-based sequence capture in a female diagnosed with CDA II

107 Here, we use chromatin immunoprecipitation-based sequencing (ChIP-seq) to identify 1559 and 1009 FH

108 Using chromatin immunoprecipitation-based sequencing (ChIP-seq), we demonstrated that KLLN b

109 DNAs in S. spontaneum following a similarity-based sequence clustering strategy.

110 has presented a great challenge to alignment-based sequence comparison among different virus families

111 WSeqKernel, just like any alignment-based sequence comparison method, depends on a substitut

112 computational analyses, including structure-based sequence comparison, surface matching, affinity gr

113 e pair interactions, derived by isostericity-based sequence comparisons with 3D RNA motifs from the R

114 Structure-based sequence comparisons with other AB5 toxin family m

115 icates the presence of ssDNA with a specific base sequence complementary to that of the probe ssDNA-f

116 -base cluster template is adjoined with a 12-base sequence complementary to the target analyte, and h

117 e-resolved genomes generated by fosmid clone-based sequencing, complemented and expanded by up to 372

118 Structure-based sequence conservation analysis reveals a conserved

119 distribution of events mirrored that of four-base sequences consisting of the GG, GT, and TG dinucleo

120 Our simulations indicate that the base sequence context affects the syn-anti conformationa

121 losing and the stability are affected by the base sequence context and by the nature of the sugar moi

122 Base sequence context effects for each adduct are caused

123 ree extracts has been found to depend on the base sequence context in which the lesion is embedded, p

124 We investigate the influence of base sequence context on the conformations of the 10S (+

125 The influence of DNA base sequence context on the removal of a bulky benzo[a]

126 he results demonstrate that, within the same base sequence context, dA-rU base pairs are less stable

127 These effects are consistent with base sequence context-dependent differences in structura

128 To understand how this base sequence contributes to termination of transcriptio

129 Coupled with fast-declining, per-base sequencing costs, this influx of DNA sequence data

130 eful consideration in the analysis of family-based sequence data and we provided practical guidance o

131 Tests on a human diploid PCR-based sequence data set, consisting of 90,270 traces fro

132 external reference panels to analyze family-based sequence data with a small sample size.

133 However, genotype-calling methods for family-based sequence data, particularly for complex families b

134 detects and genotypes SNPs from fluorescence-based sequence data.

135 on rare variant association tests of family-based sequence data.

136 ize the pedigree information when the family-based sequencing data are available.

137 ely reveal biological phenomena from capture-based sequencing data by visualizing the normalized read

138 ifferential expression analysis of the count-based sequencing data from RNA-seq.

139 Analysis of bisulphite based sequencing data is complicated due to the convolut

140 ple was combined with dilution-amplification-based sequencing data to resolve the phase of identified

141 bitrary covariate structures from bisulphite based sequencing data.

142 genotype-phenotype relations from population-based sequence databases, which is an integral facet of

143 ution conditions for both size-dependent and base sequence-dependent (or base composition-dependent)

144 The base sequence-dependent features of translesion bypass a

145 e absence of oxidants/other radicals to form base sequence-dependent intrastrand cross-links via the

146 ncies are correlated with greater extents of base sequence-dependent local untwisting and minor groov

147 Finally, the cytoplasmic tyrosine-based sequence did not provide a docking site for the AP

148 Cot-based sequence discovery represents a powerful means by

149 or improving polymerase chain reaction (PCR)-based sequence discrimination.

150 We show that a Fourier-based sequence distance function is able to identify str

151 gressive alignment algorithm using a grammar based sequence distance particularly useful in aligning

152 hat improve the agreement with the preferred base sequence do indeed enhance the rate of protein synt

153 g reads at a rate as low as 7.6 x 10(-6) per base sequenced, dramatically improving the error rate of

154 A conserved acidic leucine-based sequence (E(160)xxxLL) within human immunodeficien

155 We confirm that base sequence effects depend strongly not only on the sp

156 nome in vivo We have developed a novel probe-based sequence enrichment assay to sequence and analyze

157 analyzing complex genomes during the Sanger-based sequencing era.

158 UAL probes, allowing identification of a one-base sequencing error in the 16S rRNA database.

159 ate the utility of Ion Torrent semiconductor-based sequencing for sensitive, efficient and rapid chro

160 tractable as an alternative to nucleic-acid based sequencing for the multiplexed identification of r

161 orrhoeae recognizes only DNA containing a 10-base sequence (GCCGTCTGAA) present frequently in the chr

162 The ultrashort (<100 base) sequences generated by this technology pose specif

163 eristics of TnpA and the lack of significant base sequence homology between targets suggested that se

164 were detected in exons 7, 11, and 21 by PCR-based sequencing; however, two variant single nucleotide

165 As in DNA, PNA strands with complementary base sequences hybridize.

166 Using homology-based sequence identification, we found that the sequenc

167 Antisense DNA to a 24-base sequence identified as being present only in the 5'

168 When both base sequence identity and chemical probing reactivities

169 ilum HZ strain genome that shared 95 to 100% base sequence identity.

170 Single base sequences important for fliC-dependent transcriptio

171 We concluded that the 24-base sequence in 5'-UTR of ex5(-) mRNA functioned as a c

172 ition by a transcription factor of a defined base sequence in a process of direct read-out.

173 by base-pair domains that vary in length and base sequence in chloroform solution by means of femtose

174 t mechanism that involves the reading of the base sequence in the DNA major groove at the binding sit

175 (wHTH) motifs use an alpha helix to read the base sequence in the major groove while inserting a beta

176 volves the specific matching with a separate base sequence in the target nucleic acid.

177 We have defined two 8-base sequences in a 39-nucleotide region in the 3'-trans

178 r, ACAP1 binds to two distinct phenylalanine-based sequences in the cytoplasmic domain of TfR that fu

179 compared SPC-sequencing with electrophoresis-based sequencing in characterizing the above BRCA1 mutat

180 Some approaches maximize the number of bases sequenced in the least amount of time, generating

181 Recently, a nanopore-based sequencing instrument, the Oxford Nanopore MinION,

182 Thus, DNA base sequence is a possible factor in repeat tract expan

183 A 16 base sequence is the minimum for efficient hexamerizatio

184 The dominant feature of the base sequence is the proximity of the dA-rU base pair, w

185 Discrimination between non-contacted base sequences is commonly based on the differential abi

186 sent evidence to demonstrate that a tyrosine-based sequence (IVVY-255) present within the Na,K-ATPase

187 is kernel extends an existing class of k-mer based sequence kernels, based on the recently described

188 Candidate-gene- and exome-based sequencing led to the identification of independen

189 ponding sequence, thus implementing an index-based sequence memory storage and retrieval capability.

190 protocol and were compared against a Sanger-based sequencing method.

191 e with 454 FLX platform, the Sanger and pyro-based sequencing methodologies were complementary as eac

192 s to overcome limitations of electrophoresis-based sequencing methods.

193 We have developed a web based sequence mining tool using DataBase Independent (D

194 bda phage genome with different 8-base and 7-base sequence motif tags.

195 s work, we present 3MATRIX and 3MOTIF, a web-based sequence motif visualization system that displays

196 -III is the only isoform with consensus acid-base sequence motifs for S-nitrosylation in both domains

197 mbryogenesis, and concentrated in specific 5-base sequence motifs that are CA- and CT-rich but deplet

198 panhandle structure formed by complementary base sequence of 5' and 3' ends of viral genomic RNA.

199 nsmural myocardial mechanics and the apex-to-base sequence of longitudinal and circumferential deform

200 losteric effect should be independent of the base sequence of the bound stem-loop, as observed experi

201 y are selectively synthesized by varying the base sequence of the DNA template.

202 lexible with regard to the repeat length and base sequence of the initial oligoseeds.

203 By analyzing the denaturation profiles, the base sequence of the template can be determined.

204 have a much more relaxed requirement for the base sequence of this specificity region.

205 The base sequences of the three 13-mers are conserved in the

206 Initially, Sanger-based sequencing of 300-400 genes thought to be relevant

207 Here, we use array-based sequencing of 62 isolates from a US national monit

208 We used 454-based sequencing of a variable region of the bacterial 1

209 ormed different mutation analyses: candidate-based sequencing of all IFT-B-encoding genes in 1,467 in

210 We performed PCR-based sequencing of one region exhibiting introgression

211 ange small subunit rRNA genes (16S rDNA) PCR-based sequencing of randomly selected clones.

212 Sanger-based sequencing of the viral protein 1 (VP1) capsid reg

213 the 3' end was hybridized to a complementary base sequence on the 5' end of the target.

214 conducted in order to probe the influence of base sequences on stacked (S) versus B-type (B) conforma

215 a double-stranded DNA molecule of specified base sequence, on which a specified level of superhelica

216 pair stoichiometry, which does not depend on base sequence or base modifications.

217 sted, mutations may not be detectable by PCR-based sequencing, or other loci may be involved.

218 lements of two ABRCs are defined in terms of base sequence, orientation, and distance from each other

219 hondrial Custom Reseq microarray as an array-based sequencing platform for rapid and high-throughput

220 ocation of DNA is a crucial step in nanopore-based sequencing platforms, where control over transloca

221 By varying the base sequence preceding the uORF, we sought to vary the

222 tern compared with CPT and exhibit different base sequence preferences immediately around the top1 cl

223 l neural network (NN) with a local structure-based sequence profile database (LSBSP1).

224 the sequence profiles in the local structure-based sequence profile database (LSBSP1).

225 Information from hidden Markov model-based sequence profiles and domain architecture is calib

226 arge number of non-redundant local structure-based sequence profiles for nine-residue structure segme

227 Our method (Family-Based Sequencing Program, FamSeq) integrates Mendelian t

228 ethod will be useful for many ongoing family-based sequencing projects.

229 alogues of genetic variation from population-based sequencing provides an opportunity to screen for f

230 ore prevalent quality issues involve low per-base sequencing quality at the 3' end, PCR amplification

231 tric and universal method for processing per-base sequencing read count data called FIXSEQ.

232 generate billions of relatively short (~100-base) sequence reads at very low cost.

233 We present G-SQZ, a Huffman coding-based sequencing-reads-specific representation scheme th

234 Thus, DNA-based sequences reflect the state of the RNA prior to or

235 Because of their relatively relaxed base sequence requirements for target recognition, indir

236 With the web-based Sequence Retrieval System (SRS) it is also possibl

237 168) of mouse homeodomains to all possible 8-base sequences, revealing rich and complex patterns of s

238 reduction), whereas a PPMO with a scrambled base sequence (scrambled PPMO) had no effect on growth.

239 Furthermore, we now provide an HMM-based sequence search that places a user-provided protei

240 e for a fixed protein backbone using rotamer based sequence search, and optimizing the backbone for a

241 Structure-based sequence searches suggested that sequences in both

242 Using this information and sensitive profile-based sequence searches: (1) we predict the active site,

243 ate structure as input into the optimization-based Sequence Selection to generate low potential energ

244 We have generated 36,991,173 17-base sequence "signatures" representing transcripts from

245 d on inferred homology using a statistically based sequence similarity (SIM) method, e.g. PSI-BLAST.

246 hroughput methods for single-nucleus droplet-based sequencing (snDrop-seq) and single-cell transposom

247 s was evaluated for this study using Luminex-based sequence-specific oligonucleotide typing.

248 binding site for synthetic, non-nucleic-acid-based, sequence-specific DNA-binding molecules.

249 nts demonstrated the existence of a cellular-based, sequence-specific, posttranscriptional RNA-degrad

250 es of CTCs with high fidelity using a census-based sequencing strategy.

251 o-duplex interactions, is independent of DNA base sequences studied and should be universal for any t

252 Large consortium-based sequencing studies are using next-generation whole

253 Family-based sequencing studies have unique advantages in enric

254 onsistent in an analysis of additional exome-based sequencing studies of other neurodevelopmental dis

255 y and lack of available tools, most pedigree-based sequencing studies rely on an ad hoc combination o

256 sign, analysis, and interpretation of family-based sequencing studies to improve the ability to ident

257 search for Mendelian-disease genes in family-based sequencing studies, we implemented them in a cross

258 a variety of realistic parameters in family-based sequencing studies.

259 for facilitating target discovery for family-based sequencing studies.

260 analyzed variants obtained from a population-based sequencing study of 202 genes in >14,000 individua

261 These structures demonstrate how base sequence, substituents, and drug and ion interactio

262 led into a physical map of the region by PCR-based, sequence-tagged site (STS) content mapping.

263 nant women were tested for GBS, and amplicon-based sequencing targeting the 16S ribosomal RNA V3-V4 r

264 Nanopore-based sequencing techniques can reconstruct properties o

265 A new generation of non-Sanger-based sequencing technologies has delivered on its promi

266 We report the application of single-molecule-based sequencing technology for high-throughput profilin

267 use of conventional tandem mass spectrometry-based sequencing technology--collision-activated dissoci

268 d looping-based amplification cycle (MALBAC)-based sequencing technology.

269 DNA-unwinding elements are specific base sequences that are located in the origin of DNA rep

270 context of the evolved or directed design of base sequences that give complementary pairing, duplex f

271 DNA database for short (approximately 20-30 base) sequences that will bind to a query sequence.

272 for RNA-DNA hybrid structures with the same base sequence, the opening dynamics and the stability of

273 RNA base sequence, therefore, may be sufficient to encode th

274 e molecule sequencing (SMS) platforms enable base sequences to be read directly from individual stran

275 t inhibitor of subtilisin A by an additivity-based sequence to reactivity algorithm (Laskowski algori

276 oviding an additional test of the additivity-based sequence to reactivity algorithm.

277 quid chromatography tandem mass spectroscopy based sequencing to generate a complete map of the FAP c

278 t packages DNA, without changing the primary base sequence, to establish heritable patterns of gene e

279 quent gene deletion/duplication and homology-based sequence transfer events were identified within th

280 plications arise, they are prone to homology-based sequence transfers as shown by the incongruent phy

281 e, UACAUA, for RNA cleavage instead of the 5-base sequence, UACAU, for MazF-bs(arg).

282 rchaeon that cleaves RNA at a specific seven-base sequence (UUACUCA).

283 uniform across approximately 90% of targeted bases; sequence variants were called with >99% accuracy;

284 ly accurate tool for the detection of single base sequence variations.

285 ne sequence analysis, WebGMAP provides a web-based sequence viewer with many useful functions, includ

286 sily identified retrospectively with the web-based sequence visualization tool Integrative Genomics V

287 le-exome sequencing or targeted exon-capture-based sequencing was performed on 180 tumors.

288 Sanger-based sequencing was used for mutation scanning, validat

289 The convergent, component-based sequence we present allows for rapid construction

290 tures flanking 3' ends derived from oligo-dT-based sequencing, we developed a naive Bayes classifier

291 Using DNA-based sequencing, we evaluated the TP53 gene in all 44 p

292 on bisulphite sequencing and single-molecule-based sequencing, we generated DNA methylation maps cove

293 By the use of 16S ribosomal DNA (rDNA)-based sequencing, we identified a large variety of bacte

294 and I26 hydrophobic core positions of a GCN4-based sequence were synthesized and studied by solution-

295 NR, the SNR and confidence level with the SE-based sequences were compared with those with the GRE se

296 osine or adenine in the vicinity of extruded base sequences, were used as spectroscopic probes to exa

297 from a RNA library consisting of >10(14) 80 base sequences which differ in a 30 base randomized regi

298 y (pseudogenes) are complemented by amplicon-based sequencing with specific primers to ensure 100% co

299 The conserved base sequence within the hv region linked the two segmen

300 hods and techniques suggest that the Tyr-255-based sequence within the NKA alpha1-subunit is the site